import numpy as np from skimage.future import graph from skimage._shared.version_requirements import is_installed from numpy.testing.decorators import skipif from skimage import segmentation from numpy import testing def max_edge(g, src, dst, n): default = {'weight': -np.inf} w1 = g[n].get(src, default)['weight'] w2 = g[n].get(dst, default)['weight'] return max(w1, w2) @skipif(not is_installed('networkx')) def test_rag_merge(): g = graph.rag.RAG() for i in range(5): g.add_node(i, {'labels': [i]}) g.add_edge(0, 1, {'weight': 10}) g.add_edge(1, 2, {'weight': 20}) g.add_edge(2, 3, {'weight': 30}) g.add_edge(3, 0, {'weight': 40}) g.add_edge(0, 2, {'weight': 50}) g.add_edge(3, 4, {'weight': 60}) gc = g.copy() # We merge nodes and ensure that the minimum weight is chosen # when there is a conflict. g.merge_nodes(0, 2) assert g.edge[1][2]['weight'] == 10 assert g.edge[2][3]['weight'] == 30 # We specify `max_edge` as `weight_func` as ensure that maximum # weight is chosen in case on conflict gc.merge_nodes(0, 2, weight_func=max_edge) assert gc.edge[1][2]['weight'] == 20 assert gc.edge[2][3]['weight'] == 40 g.merge_nodes(1, 4) g.merge_nodes(2, 3) n = g.merge_nodes(3, 4, in_place=False) assert sorted(g.node[n]['labels']) == list(range(5)) assert g.edges() == [] @skipif(not is_installed('networkx')) def test_threshold_cut(): img = np.zeros((100, 100, 3), dtype='uint8') img[:50, :50] = 255, 255, 255 img[:50, 50:] = 254, 254, 254 img[50:, :50] = 2, 2, 2 img[50:, 50:] = 1, 1, 1 labels = np.zeros((100, 100), dtype='uint8') labels[:50, :50] = 0 labels[:50, 50:] = 1 labels[50:, :50] = 2 labels[50:, 50:] = 3 rag = graph.rag_mean_color(img, labels) new_labels = graph.cut_threshold(labels, rag, 10, in_place=False) # Two labels assert new_labels.max() == 1 new_labels = graph.cut_threshold(labels, rag, 10) # Two labels assert new_labels.max() == 1 @skipif(not is_installed('networkx')) def test_cut_normalized(): img = np.zeros((100, 100, 3), dtype='uint8') img[:50, :50] = 255, 255, 255 img[:50, 50:] = 254, 254, 254 img[50:, :50] = 2, 2, 2 img[50:, 50:] = 1, 1, 1 labels = np.zeros((100, 100), dtype='uint8') labels[:50, :50] = 0 labels[:50, 50:] = 1 labels[50:, :50] = 2 labels[50:, 50:] = 3 rag = graph.rag_mean_color(img, labels, mode='similarity') new_labels = graph.cut_normalized(labels, rag, in_place=False) new_labels, _, _ = segmentation.relabel_sequential(new_labels) # Two labels assert new_labels.max() == 1 new_labels = graph.cut_normalized(labels, rag) new_labels, _, _ = segmentation.relabel_sequential(new_labels) assert new_labels.max() == 1 @skipif(not is_installed('networkx')) def test_rag_error(): img = np.zeros((10, 10, 3), dtype='uint8') labels = np.zeros((10, 10), dtype='uint8') labels[:5, :] = 0 labels[5:, :] = 1 testing.assert_raises(ValueError, graph.rag_mean_color, img, labels, 2, 'non existant mode') def _weight_mean_color(graph, src, dst, n): diff = graph.node[dst]['mean color'] - graph.node[n]['mean color'] diff = np.linalg.norm(diff) return diff def _pre_merge_mean_color(graph, src, dst): graph.node[dst]['total color'] += graph.node[src]['total color'] graph.node[dst]['pixel count'] += graph.node[src]['pixel count'] graph.node[dst]['mean color'] = (graph.node[dst]['total color'] / graph.node[dst]['pixel count']) def merge_hierarchical_mean_color(labels, rag, thresh, rag_copy=True, in_place_merge=False): return graph.merge_hierarchical(labels, rag, thresh, rag_copy, in_place_merge, _pre_merge_mean_color, _weight_mean_color) @skipif(not is_installed('networkx')) def test_rag_hierarchical(): img = np.zeros((8, 8, 3), dtype='uint8') labels = np.zeros((8, 8), dtype='uint8') img[:, :, :] = 31 labels[:, :] = 1 img[0:4, 0:4, :] = 10, 10, 10 labels[0:4, 0:4] = 2 img[4:, 0:4, :] = 20, 20, 20 labels[4:, 0:4] = 3 g = graph.rag_mean_color(img, labels) g2 = g.copy() thresh = 20 # more than 11*sqrt(3) but less than result = merge_hierarchical_mean_color(labels, g, thresh) assert(np.all(result[:, :4] == result[0, 0])) assert(np.all(result[:, 4:] == result[-1, -1])) result = merge_hierarchical_mean_color(labels, g2, thresh, in_place_merge=True) assert(np.all(result[:, :4] == result[0, 0])) assert(np.all(result[:, 4:] == result[-1, -1])) result = graph.cut_threshold(labels, g, thresh) assert np.all(result == result[0, 0])